Good evening,

I am trying to work with segmentBS.sh. I want to pass my .nii.gz files that are already pre-processed with HD-BET, but I don't want to use recon-all as the first step because it takes a lot of time. I also tried recon-all -autorecon2 and 3, but it resulted in an error.

Is there any specific command that I will be able to pass my files directly to segmentBS.sh? Or is there any command for recon-all to only make subjects without processing or fast processing?

Thank you,

Ali